Magnesium in PDB 8vtj: Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine

The structure of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine, PDB code: 8vtj was solved by I.Mathews, K.Tran, S.G.Boxer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.85 / 2.81
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	141.29, 141.29, 187.18, 90, 90, 120
R / Rfree (%)	17.1 / 19.7

The structure of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine also contains other interesting chemical elements:

Iron	(Fe)	1 atom
Chlorine	(Cl)	1 atom

The binding sites of Magnesium atom in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine (pdb code 8vtj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine, PDB code: 8vtj:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg301 b:42.4 occ:1.00 MG L:BCL301 0.0 42.4 1.0 NE2 L:HIS153 1.9 44.8 1.0 ND L:BCL301 2.0 38.4 1.0 NB L:BCL301 2.1 41.1 1.0 NC L:BCL301 2.1 39.3 1.0 NA L:BCL301 2.2 40.3 1.0 CE1 L:HIS153 2.9 42.4 1.0 CD2 L:HIS153 3.0 43.1 1.0 C4D L:BCL301 3.0 40.8 1.0 C4B L:BCL301 3.1 41.8 1.0 C1D L:BCL301 3.1 41.8 1.0 C1B L:BCL301 3.1 40.1 1.0 C4A L:BCL301 3.1 43.2 1.0 C1C L:BCL301 3.1 41.4 1.0 C4C L:BCL301 3.2 38.6 1.0 C1A L:BCL301 3.2 42.5 1.0 CHC L:BCL301 3.4 42.2 1.0 CHB L:BCL301 3.4 41.2 1.0 CHD L:BCL301 3.5 39.6 1.0 CHA L:BCL301 3.5 43.6 1.0 ND1 L:HIS153 4.0 44.4 1.0 CG L:HIS153 4.1 45.3 1.0 C3D L:BCL301 4.2 42.4 1.0 C2D L:BCL301 4.3 41.6 1.0 C2B L:BCL301 4.3 38.0 1.0 C3B L:BCL301 4.3 41.4 1.0 C3A L:BCL301 4.4 42.6 1.0 C2C L:BCL301 4.4 38.0 1.0 C3C L:BCL301 4.5 39.2 1.0 C2A L:BCL301 4.5 44.1 1.0 OBB L:BPH302 4.6 43.8 1.0 CD1 L:LEU154 4.7 42.9 1.0 N01 M:9IJ210 4.7 43.9 1.0 C20 L:BPH302 4.9 46.5 1.0 CMA L:BCL301 4.9 36.9 1.0 CBD L:BCL301 5.0 41.0 1.0

Magnesium binding site 2 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg304 b:41.8 occ:1.00 MG L:BCL304 0.0 41.8 1.0 NE2 L:HIS173 1.9 42.4 1.0 ND L:BCL304 2.0 40.7 1.0 NB L:BCL304 2.1 39.4 1.0 NC L:BCL304 2.1 39.9 1.0 NA L:BCL304 2.2 40.6 1.0 CE1 L:HIS173 2.7 39.4 1.0 C4D L:BCL304 3.0 42.6 1.0 C1B L:BCL304 3.1 36.7 1.0 C4B L:BCL304 3.1 39.5 1.0 CD2 L:HIS173 3.1 39.1 1.0 C4A L:BCL304 3.1 42.4 1.0 C1C L:BCL304 3.1 41.8 1.0 C1D L:BCL304 3.2 38.5 1.0 C4C L:BCL304 3.2 38.4 1.0 C1A L:BCL304 3.2 41.7 1.0 CHB L:BCL304 3.4 37.8 1.0 CHC L:BCL304 3.4 37.6 1.0 CHA L:BCL304 3.5 44.0 1.0 CHD L:BCL304 3.5 39.1 1.0 CBB M:BCL401 3.9 41.3 1.0 ND1 L:HIS173 3.9 39.1 1.0 OBB M:BCL401 3.9 46.4 1.0 CAB M:BCL401 3.9 44.0 1.0 CG L:HIS173 4.1 41.0 1.0 C3D L:BCL304 4.2 40.0 1.0 C2B L:BCL304 4.3 39.2 1.0 C2D L:BCL304 4.3 39.3 1.0 C3B L:BCL304 4.4 39.5 1.0 C3A L:BCL304 4.4 40.8 1.0 C2C L:BCL304 4.5 40.3 1.0 C2A L:BCL304 4.5 42.8 1.0 C3C L:BCL304 4.5 37.6 1.0 CD2 L:PHE167 4.7 39.9 1.0 C3B M:BCL401 4.7 40.4 1.0 CMA L:BCL304 4.9 37.3 1.0 CBD L:BCL304 5.0 42.7 1.0

Magnesium binding site 3 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg401 b:39.6 occ:1.00 MG M:BCL401 0.0 39.6 1.0 NE2 M:HIS202 1.9 42.4 1.0 ND M:BCL401 2.0 40.3 1.0 NB M:BCL401 2.1 40.4 1.0 NC M:BCL401 2.1 39.9 1.0 NA M:BCL401 2.2 37.9 1.0 CE1 M:HIS202 2.8 39.5 1.0 C4D M:BCL401 3.0 41.3 1.0 CD2 M:HIS202 3.0 41.1 1.0 C4B M:BCL401 3.1 38.9 1.0 C1C M:BCL401 3.1 40.5 1.0 C1B M:BCL401 3.1 41.5 1.0 C1D M:BCL401 3.2 40.6 1.0 C4C M:BCL401 3.2 41.4 1.0 C4A M:BCL401 3.2 38.8 1.0 C1A M:BCL401 3.2 39.2 1.0 CHC M:BCL401 3.4 39.0 1.0 CHB M:BCL401 3.4 40.3 1.0 CHA M:BCL401 3.5 40.7 1.0 CHD M:BCL401 3.5 40.3 1.0 CBB L:BCL304 3.7 39.0 1.0 ND1 M:HIS202 4.0 39.1 1.0 CAB L:BCL304 4.0 38.5 1.0 CG M:HIS202 4.1 41.8 1.0 C3D M:BCL401 4.2 40.6 1.0 OBB L:BCL304 4.3 38.4 1.0 C2B M:BCL401 4.3 38.8 1.0 C2D M:BCL401 4.3 41.4 1.0 C3B M:BCL401 4.3 40.4 1.0 C2C M:BCL401 4.4 40.6 1.0 C3C M:BCL401 4.5 44.9 1.0 C3A M:BCL401 4.5 38.8 1.0 C2A M:BCL401 4.5 37.9 1.0 C3B L:BCL304 4.7 39.5 1.0 CD1 M:ILE206 4.7 41.5 1.0 CBD M:BCL401 4.9 37.5 1.0 CMC M:BCL401 4.9 39.0 1.0 CD2 M:LEU196 4.9 42.4 1.0

Magnesium binding site 4 out of 4 in the Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine within 5.0Å range: probe atom residue distance (Å) B Occ M:Mg409 b:42.5 occ:1.00 MG M:BCL409 0.0 42.5 1.0 NE2 M:HIS182 1.9 47.9 1.0 ND M:BCL409 2.0 41.0 1.0 NB M:BCL409 2.1 45.4 1.0 NC M:BCL409 2.1 44.5 1.0 NA M:BCL409 2.2 41.8 1.0 CD2 M:HIS182 2.9 47.5 1.0 CE1 M:HIS182 2.9 44.0 1.0 C4D M:BCL409 3.0 41.6 1.0 C4B M:BCL409 3.1 44.8 1.0 C1B M:BCL409 3.1 45.1 1.0 C4A M:BCL409 3.1 45.5 1.0 C1D M:BCL409 3.1 41.6 1.0 C1C M:BCL409 3.1 44.3 1.0 C4C M:BCL409 3.2 45.2 1.0 C1A M:BCL409 3.2 43.1 1.0 CHC M:BCL409 3.4 45.1 1.0 CHB M:BCL409 3.4 41.8 1.0 CHA M:BCL409 3.5 42.5 1.0 CHD M:BCL409 3.5 43.4 1.0 ND1 M:HIS182 4.0 42.3 1.0 CG M:HIS182 4.1 44.4 1.0 C3D M:BCL409 4.2 42.8 1.0 C2B M:BCL409 4.3 44.3 1.0 C2D M:BCL409 4.3 42.9 1.0 C3B M:BCL409 4.3 44.0 1.0 C3A M:BCL409 4.4 43.4 1.0 C2C M:BCL409 4.4 44.2 1.0 C3C M:BCL409 4.5 44.7 1.0 C2A M:BCL409 4.5 43.9 1.0 CBD M:BCL409 5.0 41.7 1.0

I.Mathews, K.Tran, S.G.Boxer. Crystal Structure of R. Sphaeroides Photosynthetic Reaction Center Variant Y(M210)2-Cyanophenylalanine To Be Published.